Sorry beeing confusing. All lines should be joind so I want to find all "aligned" words that match the regex part (ct(?:a|g)a(?:c|t))(?:.{$len}) and this six times as there are 6 sequeces. Your code does function but it is not what I want. Thank you anyway.

In reply to Re^2: Regex /g and interpolated lengths by Anonymous Monk
in thread Regex /g and interpolated lengths by Anonymous Monk

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